The salt–tolerant tomato introducd total DNA of Rhizophora stylosa griff and its wild type tomato was used as materials, which was irrigated respectively with blended sea water (mixed with seawater and freshwater according to 1:2, 1.07% salinity) and freshwater for 14 days during three to four true leaf stage. Total root protein of tomato was extracted with BPP method, and the proteomic profiles of roots of salt–tolerant tomato and wild types under different treatments was gotten by IEF and subsequent SDS–PAGE. The differential analysis of two–dimensional gel electrophoresis profiles were analyzed using Image Master 2D platinum 6.0 software. The results showed about 550 protein pots were found in the proteomic profiles of two–dimensional gel electrophoresis and 139 differential protein pots which protein expression ratios greater than 1.5 or less than 0.66 were detected. Sixty nine differential protein spots which protein expression ratios greater than 2.0 or less than 0.5, including 37 up–regulated ones, 28 down–regulated ones and 4 uniqueones, were detected in root protein profiles between salt–tolerant tomato and its wild type under the condition of salt water irrigation.